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9uaq

CryoEM structure of GFP-like protein from Aequorea coerulescens with Trimbody

Method: ELECTRON MICROSCOPY D_max: 156.7 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9uaq
deposition_date	2025-04-01
title	CryoEM structure of GFP-like protein from Aequorea coerulescens with Trimbody
keywords	STRUCTURAL PROTEIN; STRUCTURAL PROTEIN
method	ELECTRON MICROSCOPY

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Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

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2. SAXS Parameters (CRYSOL)

rg_guinier	51.32 Å
rg_electron	51.11 Å
i0	906893000.00
molecular_weight	256170.0 kDa
excluded_volume	323270 Å³
envelope_volume	453510 Å³
shell_volume	76692 Å³
envelope_diameter	159.6 Å
shell_rg	51.86 Å
envelope_rg	50.54 Å
shape_rg	51.17 Å
total_rg	50.93 Å
total_atoms	18042
n_residues	2327
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

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3. P(r) Analysis (GNOM)

dmax	156.7 Å
rg_real	51.21 Å
rg_real_error	1.29 Å
i0_real	9.0690e+08
i0_real_error	1.7000e+07
rg_reciprocal	51.40 Å
i0_reciprocal	907100000.0000
total_estimate	0.8607
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	65.7 Å
skewness	0.107
kurtosis	-0.689
angular_range	— – 0.1550 Å⁻¹
current_alpha	0.0000
highest_alpha	38300000.0000
n_real_points	32
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.988; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.221

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	H3-PrAC-5350A,2-dehydro-3-deoxyphosphogluconate aldolase/4-hydroxy-2-oxoglutarate aldolase
formula_weight	34712.4 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	A,B,C
atom_count	18042

KEIAKIVAELLRGIARIIDDIKGRDREEEVEILAKAVEKTGKPEDVRLALEAAERGVTLDQAKAIAQILSMPNLTDEQKRGFVQSLLDDPSVSKEILAEAKKLNEHQAAKAEEAARKMEELFKKHKIVAVLRANSVEEAIEKAVAVFAGGVHLIEITFTVPDADTVIKALSVLKEKGAIIGAGTVTSVEQCRKAVESGAEFIVSPHLDEEISQFCKEKGVFYMPGVMTPTELVKAMKLGHTILKLFPGEVVGPQFVKAMKGPFPNVKFVPTGGVNLDNVCEWFKAGVLAVGVGSALVKGTPDEVREKAKAFVEKIRGCTE

Source

organism	Thermotoga maritima MSB8
ncbi_taxonomy_id	243274
host_organism	Escherichia coli

Entity 2 polymer

description	GFP-nanobody-TAIL
formula_weight	25559.1 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	D,E,F

QVQLVESGGALVQPGGSLRLSCAASGFPVNRYSMRWYRQAPGKEREWVAGMSSAGDRSSYEDSVKGRFTISRDDARNTVYLQMNSLKPEDTAVYYCNVNVGFEYWGQGTLVAVVKTVEDAFLALLALEQHLGVQPADLAALAEKLNLSQLLELGELLKAAGHPLAPQVEALLKEKLKAASAAEAAGVIFQALVKDEELGKKILEWAKEFGTEEAKKAIEIAEKAYELYKKYLE

Source

organism	synthetic construct
ncbi_taxonomy_id	32630
host_organism	Escherichia coli

Entity 3 polymer

description	Green fluorescent protein
formula_weight	25464.5 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	G,H,I

GAELFTGIVPILIELNGDVNGHKFSVSGEGEGDATYGKLTLKFICTTGKLPVPWPTLVTTLXVQCFSRYPDHMKQHDFFKSAMPEGYIQERTIFFEDDGNYKSRAEVKFEGDTLVNRIELTGTDFKEDGNILGNKMEYNYNAHNVYIMTDKAKNGIKVNFKIRHNIEDGSVQLADHYQQNTPIGDGPVLLPDNHYLSTQSALSKDPNEKRDHMIYFGFVTAAAIT

Source

organism	Aequorea coerulescens
common_name	belt jellyfish
ncbi_taxonomy_id	210840
host_organism	Escherichia coli

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6. Citations (1)

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length_a	1.000 Å
length_b	1.000 Å
length_c	1.000 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	—

space_group	P 1
int_tables_number	1
crystal_system	—

resolution	2.290 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	2.29 Å
resolution_method	—
num_particles	1209700

fit	/app/data/saxs_computation/ua/9uaq/9uaq.fit
pddf	/app/data/pr_computation/ua/9uaq/9uaq.pr.out
profile	/app/data/saxs_computation/ua/9uaq/9uaq.dat

CryoEM structure of GFP-like protein from Aequorea coerulescens with Trimbody

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Unit Cell

Symmetry

Refinement

EM 3D

5. Entities & Polymer Info (3)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)